Basic Information
VIS ID
TVIS30003330
Fusion event
HIV-STMN3 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr20
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
62279984/63648631 (Hg38)
End
62279984/63648631 (Hg38)
Orient
+
Location type
Intronic
Target gene
STMN3
miRNAs that regulate target gene
hsa-mir-106b-3p ; hsa-mir-197-3p ; hsa-mir-92a-3p ; hsa-mir-1260b ; hsa-mir-4665-5p ; hsa-mir-1275 ; hsa-mir-4472 ; hsa-mir-4447 ; hsa-mir-92a-2-5p ; hsa-mir-6766-5p ; hsa-mir-6756-5p ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-7110-5p ; hsa-mir-6842-5p ; hsa-mir-6752-5p ; hsa-mir-6846-5p ; hsa-mir-6848-5p ; hsa-mir-4697-5p ; hsa-mir-4488 ; hsa-mir-1237-5p ; hsa-mir-5010-5p ; hsa-mir-4525 ; hsa-mir-6870-5p ; hsa-mir-7111-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-625-5p ; hsa-mir-6816-5p ; hsa-mir-3196 ; hsa-mir-3180-3p ; hsa-mir-6825-5p ; hsa-mir-3180 ; hsa-mir-7106-5p ; hsa-mir-6787-5p ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-765 ; hsa-mir-766-5p ; hsa-mir-3928-3p ; hsa-mir-637 ; hsa-mir-4787-5p
Nearest miRNA
hsa-mir-1-1/Upstream/361765; hsa-mir-1914/Downstream/270818;
Nearest TSS
ENST00000382410/Upstream/21381; ENST00000469728/Downstream/3763;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/6120, chr20-CpG: 150/Downstream/3532
Upstream sequence
ttgagaccagcctaggcaacatggtgaaaccccatctctactaaaaatataaaaattagctgggtgtggtggcacatgcctgttgccccagctactcagg
Downstream sequence
aggctgaggcaggagaatcacttgagcctggaaggcggaagttgtagtgagcagagattgtgccactgcgttccagcctgggcaacacagcgagactctg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate